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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
4dtx TTP DNA-directed DNA polymerase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4dtx TTPDNA-directed DNA polymerase / 1.130
3ne6 DCPDNA-directed DNA polymerase / 1.110
4fjj TTPDNA-directed DNA polymerase / 1.099
4fj5 DTPDNA-directed DNA polymerase / 1.086
4fjh DGTDNA-directed DNA polymerase / 1.084
4m3t ATPDNA-directed DNA polymerase / 1.083
4m3x ATPDNA-directed DNA polymerase / 1.078
4dtj TTPDNA-directed DNA polymerase / 1.069
4fjm DCPDNA-directed DNA polymerase / 1.062
3lzj CTPDNA-directed DNA polymerase / 1.060
3sup DCPDNA-directed DNA polymerase / 1.054
4fk4 DGTDNA-directed DNA polymerase / 1.052
4m42 ATPDNA-directed DNA polymerase / 1.049
4dtp DGTDNA-directed DNA polymerase / 1.044
4fjl DGTDNA-directed DNA polymerase / 1.032
4khy TTPDNA-directed DNA polymerase / 0.990
4dto DCPDNA-directed DNA polymerase / 0.963
4ptf DCPDNA polymerase epsilon catalytic subunit A 2.7.7.7 0.927
4dtm DCPDNA-directed DNA polymerase / 0.925
4df8 0L4DNA polymerase I, thermostable 2.7.7.7 0.827
3g6x DGTDNA polymerase iota 2.7.7.7 0.821
4dfk 0L5DNA polymerase I, thermostable 2.7.7.7 0.804
1qsy DDSDNA polymerase I, thermostable 2.7.7.7 0.783
4df4 0L3DNA polymerase I, thermostable 2.7.7.7 0.768
3au2 DGTDNA polymerase beta family (X family) / 0.756
3q23 G2PVirion DNA-directed RNA polymerase / 0.746
4rwn APC2'-5'-oligoadenylate synthase 1 2.7.7.84 0.728
1r8b ATPCCA-adding enzyme 2.7.7.72 0.700
1r89 CTPCCA-adding enzyme 2.7.7.72 0.697
1r8c UTPCCA-adding enzyme 2.7.7.72 0.697
1qtm TTPDNA polymerase I, thermostable 2.7.7.7 0.691
1cjv DADAdenylate cyclase type 2 / 0.685
1cjv DADAdenylate cyclase type 5 / 0.685
4u03 GTPCyclic GMP-AMP synthase / 0.674
2q66 ATPPoly(A) polymerase 2.7.7.19 0.673
5c03 AGSNon-receptor tyrosine-protein kinase TYK2 2.7.10.2 0.672
3t3f N5PDNA polymerase I, thermostable 2.7.7.7 0.667
4xj4 3ATCyclic GMP-AMP synthase / 0.666
3w2w ATPCRISPR system Cmr subunit Cmr2 / 0.665
5a2w AGSMitochondrial poly(A) polymerase / 0.663
4xul GTPUncharacterized protein mg662 / 0.662
2jlr ANPGenome polyprotein 3.4.21.91 0.661
4k97 ATPCyclic GMP-AMP synthase / 0.659
2jcs TTPDeoxynucleoside kinase / 0.656
1a2b GSPTransforming protein RhoA / 0.651
3fbc TYDNucleoside diphosphate kinase 2.7.4.6 0.651
3x2w ATPcAMP-dependent protein kinase catalytic subunit alpha 2.7.11.11 0.651